533112afe2a2005e80cdb1f82904ea65032d4302
braney
  Sat Oct 2 11:37:34 2021 -0700
split hg/lib into two separate libaries, one only used by the cgis

diff --git src/hg/lib/gtexEqtlCluster.c src/hg/lib/gtexEqtlCluster.c
deleted file mode 100644
index 157064e..0000000
--- src/hg/lib/gtexEqtlCluster.c
+++ /dev/null
@@ -1,327 +0,0 @@
-/* gtexEqtlCluster.c was originally generated by the autoSql program, which also 
- * generated gtexEqtlCluster.h and gtexEqtlCluster.sql.  This module links the database and
- * the RAM representation of objects. */
-
-#include "common.h"
-#include "linefile.h"
-#include "dystring.h"
-#include "jksql.h"
-#include "gtexEqtlCluster.h"
-
-
-
-char *gtexEqtlClusterCommaSepFieldNames = "chrom,chromStart,chromEnd,name,score,targetId,target,distance,maxEffect,effectType,maxPvalue,expCount,expNames,expScores,expPvals,expProbs";
-
-struct gtexEqtlCluster *gtexEqtlClusterLoadByQuery(struct sqlConnection *conn, char *query)
-/* Load all gtexEqtlCluster from table that satisfy the query given.  
- * Where query is of the form 'select * from example where something=something'
- * or 'select example.* from example, anotherTable where example.something = 
- * anotherTable.something'.
- * Dispose of this with gtexEqtlClusterFreeList(). */
-{
-struct gtexEqtlCluster *list = NULL, *el;
-struct sqlResult *sr;
-char **row;
-
-sr = sqlGetResult(conn, query);
-while ((row = sqlNextRow(sr)) != NULL)
-    {
-    el = gtexEqtlClusterLoad(row);
-    slAddHead(&list, el);
-    }
-slReverse(&list);
-sqlFreeResult(&sr);
-return list;
-}
-
-void gtexEqtlClusterSaveToDb(struct sqlConnection *conn, struct gtexEqtlCluster *el, char *tableName, int updateSize)
-/* Save gtexEqtlCluster as a row to the table specified by tableName. 
- * As blob fields may be arbitrary size updateSize specifies the approx size
- * of a string that would contain the entire query. Arrays of native types are
- * converted to comma separated strings and loaded as such, User defined types are
- * inserted as NULL. This function automatically escapes quoted strings for mysql. */
-{
-struct dyString *update = newDyString(updateSize);
-char  *expNamesArray, *expScoresArray, *expPvalsArray, *expProbsArray;
-expNamesArray = sqlStringArrayToString(el->expNames, el->expCount);
-expScoresArray = sqlFloatArrayToString(el->expScores, el->expCount);
-expPvalsArray = sqlFloatArrayToString(el->expPvals, el->expCount);
-expProbsArray = sqlFloatArrayToString(el->expProbs, el->expCount);
-sqlDyStringPrintf(update, "insert into %s values ( '%s',%u,%u,'%s',%u,'%s','%s',%d,%g,'%s',%g,%u,'%s','%s','%s','%s')", 
-	tableName,  el->chrom,  el->chromStart,  el->chromEnd,  el->name,  el->score,  el->targetId,  el->target,  el->distance,  el->maxEffect,  el->effectType,  el->maxPvalue,  el->expCount,  expNamesArray ,  expScoresArray ,  expPvalsArray ,  expProbsArray );
-sqlUpdate(conn, update->string);
-freeDyString(&update);
-freez(&expNamesArray);
-freez(&expScoresArray);
-freez(&expPvalsArray);
-freez(&expProbsArray);
-}
-
-struct gtexEqtlCluster *gtexEqtlClusterLoad(char **row)
-/* Load a gtexEqtlCluster from row fetched with select * from gtexEqtlCluster
- * from database.  Dispose of this with gtexEqtlClusterFree(). */
-{
-struct gtexEqtlCluster *ret;
-
-AllocVar(ret);
-ret->expCount = sqlUnsigned(row[11]);
-ret->chrom = cloneString(row[0]);
-ret->chromStart = sqlUnsigned(row[1]);
-ret->chromEnd = sqlUnsigned(row[2]);
-ret->name = cloneString(row[3]);
-ret->score = sqlUnsigned(row[4]);
-ret->targetId = cloneString(row[5]);
-ret->target = cloneString(row[6]);
-ret->distance = sqlSigned(row[7]);
-ret->maxEffect = sqlFloat(row[8]);
-safecpy(ret->effectType, sizeof(ret->effectType), row[9]);
-ret->maxPvalue = sqlFloat(row[10]);
-{
-int sizeOne;
-sqlStringDynamicArray(row[12], &ret->expNames, &sizeOne);
-assert(sizeOne == ret->expCount);
-}
-{
-int sizeOne;
-sqlFloatDynamicArray(row[13], &ret->expScores, &sizeOne);
-assert(sizeOne == ret->expCount);
-}
-{
-int sizeOne;
-sqlFloatDynamicArray(row[14], &ret->expPvals, &sizeOne);
-assert(sizeOne == ret->expCount);
-}
-{
-int sizeOne;
-sqlFloatDynamicArray(row[15], &ret->expProbs, &sizeOne);
-assert(sizeOne == ret->expCount);
-}
-return ret;
-}
-
-struct gtexEqtlCluster *gtexEqtlClusterLoadAll(char *fileName) 
-/* Load all gtexEqtlCluster from a whitespace-separated file.
- * Dispose of this with gtexEqtlClusterFreeList(). */
-{
-struct gtexEqtlCluster *list = NULL, *el;
-struct lineFile *lf = lineFileOpen(fileName, TRUE);
-char *row[16];
-
-while (lineFileRow(lf, row))
-    {
-    el = gtexEqtlClusterLoad(row);
-    slAddHead(&list, el);
-    }
-lineFileClose(&lf);
-slReverse(&list);
-return list;
-}
-
-struct gtexEqtlCluster *gtexEqtlClusterLoadAllByChar(char *fileName, char chopper) 
-/* Load all gtexEqtlCluster from a chopper separated file.
- * Dispose of this with gtexEqtlClusterFreeList(). */
-{
-struct gtexEqtlCluster *list = NULL, *el;
-struct lineFile *lf = lineFileOpen(fileName, TRUE);
-char *row[16];
-
-while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
-    {
-    el = gtexEqtlClusterLoad(row);
-    slAddHead(&list, el);
-    }
-lineFileClose(&lf);
-slReverse(&list);
-return list;
-}
-
-struct gtexEqtlCluster *gtexEqtlClusterCommaIn(char **pS, struct gtexEqtlCluster *ret)
-/* Create a gtexEqtlCluster out of a comma separated string. 
- * This will fill in ret if non-null, otherwise will
- * return a new gtexEqtlCluster */
-{
-char *s = *pS;
-
-if (ret == NULL)
-    AllocVar(ret);
-ret->chrom = sqlStringComma(&s);
-ret->chromStart = sqlUnsignedComma(&s);
-ret->chromEnd = sqlUnsignedComma(&s);
-ret->name = sqlStringComma(&s);
-ret->score = sqlUnsignedComma(&s);
-ret->targetId = sqlStringComma(&s);
-ret->target = sqlStringComma(&s);
-ret->distance = sqlSignedComma(&s);
-ret->maxEffect = sqlFloatComma(&s);
-sqlFixedStringComma(&s, ret->effectType, sizeof(ret->effectType));
-ret->maxPvalue = sqlFloatComma(&s);
-ret->expCount = sqlUnsignedComma(&s);
-{
-int i;
-s = sqlEatChar(s, '{');
-AllocArray(ret->expNames, ret->expCount);
-for (i=0; i<ret->expCount; ++i)
-    {
-    ret->expNames[i] = sqlStringComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-}
-{
-int i;
-s = sqlEatChar(s, '{');
-AllocArray(ret->expScores, ret->expCount);
-for (i=0; i<ret->expCount; ++i)
-    {
-    ret->expScores[i] = sqlFloatComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-}
-{
-int i;
-s = sqlEatChar(s, '{');
-AllocArray(ret->expPvals, ret->expCount);
-for (i=0; i<ret->expCount; ++i)
-    {
-    ret->expPvals[i] = sqlFloatComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-}
-{
-int i;
-s = sqlEatChar(s, '{');
-AllocArray(ret->expProbs, ret->expCount);
-for (i=0; i<ret->expCount; ++i)
-    {
-    ret->expProbs[i] = sqlFloatComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-}
-*pS = s;
-return ret;
-}
-
-void gtexEqtlClusterFree(struct gtexEqtlCluster **pEl)
-/* Free a single dynamically allocated gtexEqtlCluster such as created
- * with gtexEqtlClusterLoad(). */
-{
-struct gtexEqtlCluster *el;
-
-if ((el = *pEl) == NULL) return;
-freeMem(el->chrom);
-freeMem(el->name);
-freeMem(el->targetId);
-freeMem(el->target);
-/* All strings in expNames are allocated at once, so only need to free first. */
-if (el->expNames != NULL)
-    freeMem(el->expNames[0]);
-freeMem(el->expNames);
-freeMem(el->expScores);
-freeMem(el->expPvals);
-freeMem(el->expProbs);
-freez(pEl);
-}
-
-void gtexEqtlClusterFreeList(struct gtexEqtlCluster **pList)
-/* Free a list of dynamically allocated gtexEqtlCluster's */
-{
-struct gtexEqtlCluster *el, *next;
-
-for (el = *pList; el != NULL; el = next)
-    {
-    next = el->next;
-    gtexEqtlClusterFree(&el);
-    }
-*pList = NULL;
-}
-
-void gtexEqtlClusterOutput(struct gtexEqtlCluster *el, FILE *f, char sep, char lastSep) 
-/* Print out gtexEqtlCluster.  Separate fields with sep. Follow last field with lastSep. */
-{
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->chrom);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-fprintf(f, "%u", el->chromStart);
-fputc(sep,f);
-fprintf(f, "%u", el->chromEnd);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->name);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-fprintf(f, "%u", el->score);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->targetId);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->target);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-fprintf(f, "%d", el->distance);
-fputc(sep,f);
-fprintf(f, "%g", el->maxEffect);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->effectType);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-fprintf(f, "%g", el->maxPvalue);
-fputc(sep,f);
-fprintf(f, "%u", el->expCount);
-fputc(sep,f);
-{
-int i;
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->expCount; ++i)
-    {
-    if (sep == ',') fputc('"',f);
-    fprintf(f, "%s", el->expNames[i]);
-    if (sep == ',') fputc('"',f);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-}
-fputc(sep,f);
-{
-int i;
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->expCount; ++i)
-    {
-    fprintf(f, "%g", el->expScores[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-}
-fputc(sep,f);
-{
-int i;
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->expCount; ++i)
-    {
-    fprintf(f, "%g", el->expPvals[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-}
-fputc(sep,f);
-{
-int i;
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->expCount; ++i)
-    {
-    fprintf(f, "%g", el->expProbs[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-}
-fputc(lastSep,f);
-}
-
-/* -------------------------------- End autoSql Generated Code -------------------------------- */
-